a collection of scripts for organising bacterial genomes by species
☆80Mar 18, 2022Updated 4 years ago
Alternatives and similar repositories for Bacsort
Users that are interested in Bacsort are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- A tool for removing redundant genomes from a set of assemblies☆84May 6, 2026Updated 2 months ago
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆50May 18, 2026Updated 2 months ago
- Accurate, resource-frugal and deterministic DNA sequence classifier.☆36Jul 2, 2026Updated 3 weeks ago
- Pipeline for analysing intergenic regions in bacteria☆39Oct 25, 2019Updated 6 years ago
- Rapid determination of appropriate reference genomes.☆102Jan 22, 2025Updated last year
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- A list of weak Bacterial assemblies in GenBank☆18Aug 3, 2017Updated 8 years ago
- Create a tree using Mash distances☆188Oct 24, 2023Updated 2 years ago
- Paint genomes with taxa-specific k-mer probabilities☆16Apr 4, 2022Updated 4 years ago
- StrainEst - abundance estimation of strains☆20Jan 17, 2020Updated 6 years ago
- C++ tools for NCBI taxonomy tasks☆12Jun 26, 2025Updated last year
- Build a partitioned pangenome graph from microbial genomes☆307Updated this week
- Benchmarking of long-read assembly tools for bacterial whole genomes☆172Mar 15, 2021Updated 5 years ago
- Kraken(2) database based on the GTDB project☆28Dec 20, 2018Updated 7 years ago
- De novo Extraction of Strains from MetAgeNomes☆72Jun 17, 2020Updated 6 years ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- Histosketching Using Little Kmers☆56May 25, 2023Updated 3 years ago
- Application and Python module for average nucleotide identity analyses of microbes.☆218Jul 1, 2025Updated last year
- Genome comparison via de Bruijn graph. To get the latest stable version, please visit our site.☆70Oct 29, 2020Updated 5 years ago
- an interactive viewer for populations of bacterial genomes linked by a phylogeny☆133Feb 26, 2024Updated 2 years ago
- GrapeTree is a fully interactive, tree visualization program, which supports facile manipulations of both tree layout and metadata. Click…☆90Updated this week
- BItsliced Genomic Signature Index - Efficient indexing and search in very large collections of WGS data☆124Aug 24, 2023Updated 2 years ago
- Scripts to analyze gene content and make a concatenated alignment of core genes from bacterial genomes.☆19Jul 20, 2018Updated 8 years ago
- Interactive, web tool for exploring pan-genome of bacterial strains☆50Jan 14, 2026Updated 6 months ago
- Get microbial sequence data easier and faster☆29Nov 7, 2019Updated 6 years ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- A genomic minhashing implementation in Rust☆103Jul 8, 2026Updated 2 weeks ago
- Disty McMatrixface - compute a distance matrix from a core genome alignment file☆15Mar 15, 2023Updated 3 years ago
- Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.☆259May 13, 2026Updated 2 months ago
- Bonsai: Fast, flexible taxonomic analysis and classification☆70Apr 9, 2024Updated 2 years ago
- A toolbox for pangenome analysis and threshold evaluation.☆101Jul 8, 2022Updated 4 years ago
- Metagenomic profiling and phylogenetic distances via common kmers☆42Jul 12, 2021Updated 5 years ago
- ⚡♠️ Assemble bacterial isolate genomes from Illumina paired-end reads☆261Jun 11, 2026Updated last month
- Parse multiple Antimicrobial Resistance Analysis Reports into a common data structure☆180Apr 22, 2026Updated 3 months ago
- PLSDB pipeline to collect bacterial plasmids from NCBI☆41Oct 23, 2024Updated last year
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Pan-genome wide association studies☆219May 29, 2024Updated 2 years ago
- Fast genome and metagenome distance estimation using MinHash☆448Sep 19, 2025Updated 10 months ago
- Scan contig files against PubMLST typing schemes☆294Jun 17, 2026Updated last month
- ☆84Sep 13, 2023Updated 2 years ago
- Comprehensive resistance detection from WGS data☆20Jun 4, 2026Updated last month
- CAMITAX: Taxon labels for microbial genomes☆31Dec 14, 2023Updated 2 years ago
- Gene cluster comparison figure generator☆651Dec 22, 2025Updated 7 months ago